Team:IISER-Pune-India/TeamNotebook/Team Notebook 11e9906b405543a29361e38a50c81024/Dry Lab General Meeting 1 4a4b0a41cb8a4c088c99f319a522f990

Dry Lab General Meeting 1

Dry Lab General Meeting 1

DepartmentDry Lab
DescriptionIntroductory Meeting to decide on what language and algorithm to use
HP sub-branch
Property 1
Property 2

We have decided on using MATLAB alongside SBML for modelling.

  • Note: all models will always try to find optimal conditions i.e., Temperature, pH, salt and other nutrients.

Possible modelling we can work on (In order of Priority):

  1. Model Cyanobacteria dynamics and production rates for a pure culture under the co culture environments i.e., Use appropriate CO2CO_2 concentrations, salt concentrations, simulate the sucrose sink which is E. coli. (Maybe ROS)
  1. Model E. coli dynamics and production rates for a pure culture under the co culture environments i.e., Use same salt concentration, sucrose from cyanobacteria. (Maybe ROS)
  1. Modify the conditions of the co culture environment (well, separately for now) for a combined optimum growth that does not affect the stability of the co culture.
  1. Modify both models (matrix) with respect to the modified environment to get optimal sucrose and succinate production. Identify the corresponding genes to knockout or up-regulate.
  1. Model co culture dynamics (prior to final stable ratio).
  1. Model the cell degradation and medium consumption in the stable ratio state to determine to rate at which we should add E. coli, salt and other nutrients. (maybe cyanobacteria as well?)
  1. Design a Bioreactor based on a linear model for **** (shell or something 😂) shading. Cell
  1. Economical modelling based on carbon source (open air or from effluents), bioreactor cost, succinate selling price etc.
  1. Check for Carbon neutral or Carbon negativity.

Division of Work

SBML - Namasi, Soorya, Arsh

FBA Co culture - Arya, Jason, Misaal

FBA Mono culture - Everyone

COBRA - Everyone

MATLAB - everyone who doesn't know MATLAB